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==Introduction==
This is a test!
<br><br>

==1 Introduction to Molecular Biophysics==
'''1.1 Introduction to Macromolecular Structure; Inter-atomic Forces & Force Fields (4.5 hr)'''<br>
1.1.1 Primary Through Quaternary Structure<Br>
1.1.2 Covalent Bonding<br>
1.1.3 Non-bonded Interactions (hydrophobic effect covered later)<br>
1.1.4 Forces/Fields Used to Model Interactions Computationally<Br><br>
'''1.2 Thermodynamics & Kinetics (7.5 hr)'''<br>
Illustrated with applications to Membrane Transport.<br>
1.2.1	Energy, Entropy, Free Energy<Br>
1.2.1.1	Hydrophobic effect<br>
1.2.2	Statistical mechanics & determinism<br>
1.2.3	Equilibria<br>
1.2.3.1	Reactions<br>
1.2.3.2	Binding<br>
1.2.3.3 Calorimetry<br>
1.2.3.4	Conformation<br>
1.2.4	Transport & Diffusion<br>
1.2.4.1	Membranes / Proteins<Br>
1.2.4.2	Ion channels & pumps<Br>
1.2.4.3	Action potentials / measurement / synapses<br><br>
'''1.3 Theory of Crystallography (6 hr)'''<br>
1.3.1	Diffraction theory<Br>
1.3.2	Phasing methods<br>
1.3.3	Maps, Models & Refinement<br>
1.3.4	Quality assessment<br><br>
'''1.4 Spectroscopy - Visible & UV (6 hr)'''<Br>
1.4.1	Absorption<Br>
1.4.2	Polarization spectroscopy<Br>
1.4.3	Fluorescence<br>
1.4.3.1	Fluorescence anisotropy<br>
1.4.3.2	FRET<br><br>
'''1.5 Introduction to Magnetic Resonance (7.5 hr)'''<br>
1.5.1	Spin Physics & 2-state models<Br>
1.5.2	Magentic Resonance Imaging<Br>
1.5.3	Biomolecular Structure determination (Introduction)<Br><Br>
==2 Advanced Molecular Biophysics==
'''2.1 Avanced Magnetic Resonance (7.5 hr):'''<Br>
2.1.1	Methods of Biomolecular Structure Determination<Br>
2.1.2	Probing the dynamics of macromolecules<Br>
2.1.3   Special topics: Paramagnetic NMR & ESR, spin labeling & Solid-state NMR<br><br>
'''2.2 Visible & Electron Microscopy (4 hr)'''<br>
2.2.1	Theory of Light Microscopy (1 hr)<br>
2.2.2   Fluorescence, Confocal & Correlative Microscopy (0.5 hr)<br>
2.2.3   Transmission EM  theory<br>
2.2.2	Biological samples<Br>
2.2.3	3D reconstruction<br><BR><br>
'''2.3 Practical Crystallography (8 hr)'''<br>
2.3.1	Crystallization (+ lab)<Br>
2.3.2	Data collection (+ lab?)<br>
2.3.3	Phasing by molecular replacement (+ computer exercise?)<br>
2.3.4	Model-building & Refinement (+ computer exercise)<br><br>
'''2.4 Interpretation of Structure (5.5 hr)'''<Br>
2.4.1	Databases & their use<br>
2.4.2	Homology modeling<Br>
2.4.3	Docking<Br>
2.4.4	Electrostatics  Potentials & pKs<br><Br>
'''2.5 Molecular Dynamics (2.5 hr)'''<br>
2.5.1	Simulated annealing<br>
2.5.2	Normal modes<br>
2.5.3	Accelerated methods / enhanced sampling<br><Br>
'''2.6	Mass spectrometry in biomolecular structure / interactions (2 hr)'''<br>
2.6.1	Footprinting<br>
2.6.2	Dynamics<br><Br>
'''2.7 Single Molecule Methods (time available, or reading)'''<br>
2.7.1	Fluorescence<br> 
2.7.2	AFM<br><Br>
'''2.9 Case Studies to be woven in:'''<br>
(a) Molecular Motors<br>
(b) Protein Mis-folding & Disease<br><br>
'''2.10 Topics to be covered in reading (only)'''<br>
(a) Surface Plasmon Resonance<br>
==3 Sources==
[http://www.med.upenn.edu/bmbgrad/Program/course_descriptions/course_descriptions.html UPenn Biochemistry and Molecular Biology Graduate Program]
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